HsaINT1025122 @ hg38
Intron Retention
Gene
ENSG00000204301 | NOTCH4
Description
notch 4 [Source:HGNC Symbol;Acc:HGNC:7884]
Coordinates
chr6:32212474-32212911:-
Coord C1 exon
chr6:32212824-32212911
Coord A exon
chr6:32212628-32212823
Coord C2 exon
chr6:32212474-32212627
Length
196 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CGCTCCCTCCCACCCCTCAGACT
3' ss Score
8.14
Exon sequences
Seq C1 exon
CCCCTGTAGGAATAGGGCAACCTGCCAGGACAGCCCTCAGGGTCCCCGCTGCCTCTGCCCCACTGGCTACACCGGAGGCAGCTGCCAG
Seq A exon
GTGAGGGCCATTGAAGTCAGGCGTGCTGAGGAGGGAAGTGGCTGGGAGGGAAACCAGGGAGGGTCACCTGGTCCCAGGCCATTCAGGAGAAGGTTTTTGAAGTAAGGGATTTCGAGGAGCTGGAGTGGGCAGAGGACCATCTCTGGGCTGAGAATCTGATGCTATGTCCTGCCTCACGCTCCCTCCCACCCCTCAG
Seq C2 exon
ACTCTGATGGACTTATGTGCCCAGAAGCCCTGCCCACGCAATTCCCACTGCCTCCAGACTGGGCCCTCCTTCCACTGCTTGTGCCTCCAGGGATGGACCGGGCCTCTCTGCAACCTTCCACTGTCCTCCTGCCAGAAGGCTGCACTGAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204301:ENST00000375023:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(87.1=90.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=80.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTGTAGGAATAGGGCAAC
R:
CTTGGCTCAGTGCAGCCTTC
Band lengths:
241-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains